Strain identifier

BacDive ID: 288

Type strain: Yes

Species: Aeromonas rivuli

Strain Designation: WB4.1-19

Strain history: CIP <- 2011, M.J. Figueras, Rovira i Virgili Univ., Reus, Spain: strain WB4.1-19

NCBI tax ID(s): 648794 (species)

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General

@ref: 16386

BacDive-ID: 288

DSM-Number: 22539

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Aeromonas rivuli WB4.1-19 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from hardwater rivulet water.

NCBI tax id

  • NCBI tax id: 648794
  • Matching level: species

strain history

@refhistory
16386<- E. M. Brambilla, DSMZ; WB4.1-19
122241CIP <- 2011, M.J. Figueras, Rovira i Virgili Univ., Reus, Spain: strain WB4.1-19

doi: 10.13145/bacdive288.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Aeromonadales
  • family: Aeromonadaceae
  • genus: Aeromonas
  • species: Aeromonas rivuli
  • full scientific name: Aeromonas rivuli Figueras et al. 2011

@ref: 16386

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas rivuli

full scientific name: Aeromonas rivuli Figueras et al. 2011

strain designation: WB4.1-19

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23263negative2.0-2.5 µm0.5-0.7 µmrod-shapedyesmonotrichous, polar
69480yes99.202
69480negative99.998
122241negativerod-shapedyes

colony morphology

  • @ref: 23263
  • type of hemolysis: gamma
  • colony size: 2.0-2.5 mm
  • colony color: beige, opaque
  • incubation period: 2 days
  • medium used: TSA

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16386TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
23263Trypticase Soy Agar (TSA)yes
37589MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122241CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
16386positivegrowth28mesophilic
23263positivegrowth7-37
23263positiveoptimum30mesophilic
37589positivegrowth30mesophilic

culture pH

  • @ref: 23263
  • ability: positive
  • type: optimum
  • pH: 8.7-9.0
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 122241
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

halophily

  • @ref: 23263
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2326327613amygdalin-builds acid from
2326315963ribitol-builds acid from
2326317108D-arabinose-builds acid from
2326318333D-arabitol-builds acid from
2326328847D-fucose-builds acid from
2326362318D-lyxose-builds acid from
2326317924D-sorbitol-builds acid from
2326316443D-tagatose-builds acid from
2326365327D-xylose-builds acid from
2326316813galactitol-builds acid from
2326317113erythritol-builds acid from
2326328066gentiobiose-builds acid from
2326317268myo-inositol-builds acid from
2326315443inulin-builds acid from
2326330849L-arabinose-builds acid from
2326318403L-arabitol-builds acid from
2326318287L-fucose-builds acid from
2326362345L-rhamnose-builds acid from
2326317266L-sorbose-builds acid from
2326365328L-xylose-builds acid from
2326317716lactose-builds acid from
232636731melezitose-builds acid from
2326328053melibiose-builds acid from
23263320061methyl alpha-D-glucopyranoside-builds acid from
2326343943methyl alpha-D-mannoside-builds acid from
2326374863methyl beta-D-xylopyranoside-builds acid from
2326316634raffinose-builds acid from
2326332528turanose-builds acid from
2326317151xylitol-builds acid from
2326317234glucose-builds gas from
2326327897tryptophan-energy source
23263168082-dehydro-D-gluconate-growth
23263174265-dehydro-D-gluconate-growth
2326324265gluconate-growth
2326330849L-arabinose-growth
2326324996lactate-growth
232634767elastin-hydrolysis
2326315824D-fructose+builds acid from
2326312936D-galactose+builds acid from
2326317634D-glucose+builds acid from
2326316899D-mannitol+builds acid from
2326316024D-mannose+builds acid from
2326316988D-ribose+builds acid from
2326317754glycerol+builds acid from
2326317306maltose+builds acid from
23263506227N-acetylglucosamine+builds acid from
2326317814salicin+builds acid from
2326317992sucrose+builds acid from
2326327082trehalose+builds acid from
2326312936D-galactose+growth
2326316899D-mannitol+growth
2326317754glycerol+growth
2326328087glycogen+growth
2326315971L-histidine+growth
2326317203L-proline+growth
2326317306maltose+growth
2326317814salicin+growth
2326328017starch+growth
2326317992sucrose+growth
2326318305arbutin+hydrolysis
2326316991dna+hydrolysis
232634853esculin+hydrolysis
232635291gelatin+hydrolysis
2326328017starch+hydrolysis
2326353426tween 80+hydrolysis
2326317632nitrate+reduction
2326317057cellobiose+/-builds acid from
2326316947citrate+/-carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen+builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
683714853esculin+builds acid from
6837118305arbutin+builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol+builds acid from
12224117632nitrate+reduction
12224116301nitrite-reduction

antibiotic resistance

  • @ref: 23263
  • ChEBI: 73908
  • metabolite: vibriostat
  • is antibiotic: yes
  • is resistant: yes
  • resistance conc.: 150 µg

metabolite production

@refChebi-IDmetaboliteproduction
2326335581indoleno
2326316136hydrogen sulfideno
2326315688acetoinno
12224135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testcitrate test
2326315688acetoin-
2326335581indole-
2326316947citrate+/-

enzymes

@refvalueactivityec
23263arginine dihydrolase+3.5.3.6
23263beta-galactosidase+3.2.1.23
23263catalase+1.11.1.6
23263cytochrome oxidase+1.9.3.1
23263lysine decarboxylase-4.1.1.18
23263ornithine decarboxylase-4.1.1.17
23263tryptophan deaminase-4.1.99.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
122241oxidase+
122241catalase+1.11.1.6
122241urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122241-+++-+--+-++-----+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122241+---+----++++----+---+-+++/-++--++---++------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16386hardwater rivulet waterHarz, Westerhöfer BachGermanyDEUEurope
23263karst hard water creek, Westerhöfer Bach, located at the north-western slope of the Harz Mountain
122241Environment, Karst hard water creekWesterhöfer Bach, Lower SaxonyGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#River (Creek)
#Environmental#Terrestrial#Geologic

taxonmaps

  • @ref: 69479
  • File name: preview.99_3322.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_11;96_15;97_15;98_18;99_3322&stattab=map
  • Last taxonomy: Aeromonas
  • 16S sequence: FJ976900
  • Sequence Identity:
  • Total samples: 39
  • aquatic counts: 24
  • animal counts: 12
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
163861Risk group (German classification)
1222411Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas rivuli strain DSM 22539 16S ribosomal RNA gene, partial sequenceJX014451151ena648794
16386Aeromonas rivuli strain DSM 22539 16S ribosomal RNA gene, partial sequenceFJ9769001503ena648794

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas rivuli DSM 22539GCA_000820045scaffoldncbi648794
66792Aeromonas rivuli DSM 22539648794.3wgspatric648794
66792Aeromonas rivuli DSM 225392645728067draftimg648794

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.127yes
flagellatedyes90.722yes
gram-positiveno99.143no
anaerobicno98.123no
aerobicyes88.883no
halophileno90.77no
spore-formingno96.585no
glucose-utilyes91.904no
thermophileno99.39no
glucose-fermentyes88.695no

External links

@ref: 16386

culture collection no.: DSM 22539, CECT 7518, MDC 2511, CIP 110301

straininfo link

  • @ref: 69970
  • straininfo: 376018

literature

  • topic: Phylogeny
  • Pubmed-ID: 20207806
  • title: Aeromonas rivuli sp. nov., isolated from the upstream region of a karst water rivulet.
  • authors: Figueras MJ, Alperi A, Beaz-Hidalgo R, Stackebrandt E, Brambilla E, Monera A, Martinez-Murcia AJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.016139-0
  • year: 2010
  • mesh: Aeromonas/*classification/isolation & purification, *Bacterial Typing Techniques, DNA, Bacterial/genetics, Fresh Water/*microbiology, Genes, Bacterial, Molecular Sequence Data, Multilocus Sequence Typing, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16386Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22539)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22539
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
23263M. J. Figueras, A. Alperi, R. Beaz-Hidalgo, E. Stackebrandt, E. Brambilla, A. Monera, A. J. Martínez-Murcia10.1099/ijs.0.016139-0Aeromonas rivuli sp. nov., isolated from the upstream region of a karst water rivuletIJSEM 61: 242-248 201120207806
37589Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8145
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
69970Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID376018.1StrainInfo: A central database for resolving microbial strain identifiers
122241Curators of the CIPCollection of Institut Pasteur (CIP 110301)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110301